Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Esr1

Cell type

Cell type Class
Others
Cell type
Fibroblasts
NA
NA

Attributes by original data submitter

Sample

source_name
immortalized fibroblasts
cell type
3T9 fibroblastst
genotype
infected with BP-MycER-WT
treatment
OHT 4h
chip antibody
ER-alpha 06-935 Santa Cruz

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 250 bp were immunoprecipitated using different antibodies. Libraries were prepared for Illumina sequencing using a standard protocol consisting in blunting, addition of dA overhangs, ligation of Illumina adapters, selection with AMPure beads and PCR with index primers.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
31875622
Reads aligned (%)
91.6
Duplicates removed (%)
10.8
Number of peaks
16034 (qval < 1E-05)

mm9

Number of total reads
31875622
Reads aligned (%)
91.4
Duplicates removed (%)
11.5
Number of peaks
16042 (qval < 1E-05)

Base call quality data from DBCLS SRA